Cross-depth analysis of marine bacterial networks suggests downward propagation of temporal changes

R: A Language and Environment for Statistical Computing

R Core Team (2000) · doi:10.32614/r.manuals · Cited by 355,706 · see citing works

Collective dynamics of ‘small-world’ networks

Watts, D. J., & Strogatz, S. H. (1998) · Nature · doi:10.1038/30918 · Cited by 43,060 · see citing works

Statistical mechanics of complex networks

Albert, R., & Barabási, A.-L. (2002) · Reviews of Modern Physics · doi:10.1103/revmodphys.74.47 · Cited by 20,471 · see citing works

Modularity and community structure in networks

Newman, M. E. J. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0601602103 · Cited by 12,256 · see citing works

Enterotypes of the human gut microbiome

MetaHIT Consortium (additional members), Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., et al. (2011) · Nature · doi:10.1038/nature09944 · Cited by 7,548 · see citing works

Quorum Sensing in Bacteria

Miller, M. B., & Bassler, B. L. (2001) · Annual Review of Microbiology · doi:10.1146/annurev.micro.55.1.165 · Cited by 5,127 · see citing works

Cytoscape 2.8: new features for data integration and network visualization

Smoot, M. E., Ono, K., Ruscheinski, J., Wang, P., & Ideker, T. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq675 · Cited by 4,770 · see citing works

Microbial interactions: from networks to models

Faust, K., & Raes, J. (2012) · Nature Reviews Microbiology · doi:10.1038/nrmicro2832 · Cited by 4,138 · see citing works

Using network analysis to explore co-occurrence patterns in soil microbial communities

Barberán, A., Bates, S. T., Casamayor, E. O., & Fierer, N. (2012) · The ISME Journal · doi:10.1038/ismej.2011.119 · Cited by 3,044 · see citing works

The modularity of pollination networks

Olesen, J. M., Bascompte, J., Dupont, Y. L., & Jordano, P. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0706375104 · Cited by 2,616 · see citing works

Food-web structure and network theory: The role of connectance and size

Dunne, J. A., Williams, R. J., & Martinez, N. D. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.192407699 · Cited by 1,531 · see citing works

Microbial co-occurrence relationships in the human microbiome

Faust, K., Sathirapongsasuti, J. F., Izard, J., Segata, N., Gevers, D., Raes, J., & Huttenhower, C. (2012) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002606 · Cited by 1,527 · see citing works

Network ‘Small-World-Ness’: A Quantitative Method for Determining Canonical Network Equivalence

Humphries, M. D., & Gurney, K. (2008) · PLoS ONE · doi:10.1371/journal.pone.0002051 · Cited by 1,442 · see citing works

Ecological networks and their fragility

Montoya, J., Pimm, S., & Solé, R. (2006) · Nature · doi:10.1038/nature04927 · Cited by 1,390 · see citing works

Microbial community structure and its functional implications

Fuhrman, J. A. (2009) · Nature · doi:10.1038/nature08058 · Cited by 1,384 · see citing works

Defining seasonal marine microbial community dynamics

Gilbert, J. A., Steele, J. A., Caporaso, J. G., Steinbrück, L., Reeder, J., Temperton, B., Huse, S. M., McHardy, A. C., Knight, R. D., Joint, I. R., et al. (2011) · The ISME Journal · doi:10.1038/ismej.2011.107 · Cited by 1,044 · see citing works

Functional Molecular Ecological Networks

Zhou, J. Z., Deng, Y., Luo, F., He, Z., Tu, Q., & Zhi, X. (2010) · mBio · doi:10.1128/mbio.00169-10 · Cited by 1,044 · see citing works

Niche Partitioning Among Prochlorococcus Ecotypes Along Ocean-Scale Environmental Gradients

Johnson, Z. I., Zinser, E. R., Coe, A., McNulty, N. P., Woodward, E. M. S., & Chisholm, S. W. (2006) · Science · doi:10.1126/science.1118052 · Cited by 937 · see citing works

Review: Ecological networks – beyond food webs

Ings, T. C., Montoya, J. M., Bascompte, J., Blüthgen, N., Brown, L., Dormann, C. F., Edwards, F., Figueroa, D., Jacob, U., Jones, J. I., et al. (2009) · Journal of Animal Ecology · doi:10.1111/j.1365-2656.2008.01460.x · Cited by 934 · see citing works

Marine microbial community dynamics and their ecological interpretation

Fuhrman, J. A., Cram, J. A., & Needham, D. M. (2015) · Nature Reviews Microbiology · doi:10.1038/nrmicro3417 · Cited by 905 · see citing works

Marine bacterial, archaeal and protistan association networks reveal ecological linkages

Steele, J. A., Countway, P. D., Xia, L., Vigil, P. D., Beman, J. M., Kim, D. Y., Chow, C.-E. T., Sachdeva, R., Jones, A. C., Schwalbach, M. S., et al. (2011) · The ISME Journal · doi:10.1038/ismej.2011.24 · Cited by 634 · see citing works

Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean

Swan, B. K., Martínez‐García, M., Preston, C. M., Sczyrba, A., Woyke, T., Lamy, D., Reinthaler, T., Poulton, N. J., Masland, E. D. P., Gómez, M. L., et al. (2011) · Science · doi:10.1126/science.1203690 · Cited by 561 · see citing works

Zooplankton vertical migration and the active transport of dissolved organic and inorganic carbon in the Sargasso Sea

Steinberg, D. K., Carlson, C. A., Bates, N. R., Goldthwait, S. A., Madin, L. P., & Michaels, A. F. (2000) · Deep Sea Research Part I Oceanographic Research Papers · doi:10.1016/s0967-0637(99)00052-7 · Cited by 512 · see citing works

Dissolved organic matter (DOM) release by phytoplankton in the contemporary and future ocean

Thornton, D. C. O. (2014) · European Journal of Phycology · doi:10.1080/09670262.2013.875596 · Cited by 491 · see citing works

A global network of coexisting microbes from environmental and whole-genome sequence dataPreprint

Chaffron, S., Rehrauer, H., Pernthaler, J., & von Mering, C. (2010) · Genome Research · doi:10.1101/gr.104521.109 · Cited by 491 · see citing works

Coherent dynamics and association networks among lake bacterioplankton taxa

Eiler, A., Heinrich, F., & Bertilsson, S. (2011) · The ISME Journal · doi:10.1038/ismej.2011.113 · Cited by 483 · see citing works

Estimation of Sparse Jacobian Matrices and Graph Coloring Problems

Coleman, T. F., & Morè, J. J. (1983) · SIAM Journal on Numerical Analysis · doi:10.1137/0720013 · Cited by 470 · see citing works

Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of California

Beman, J. M., Popp, B. N., & Francis, C. A. (2008) · The ISME Journal · doi:10.1038/ismej.2007.118 · Cited by 467 · see citing works

Predation as a shaping force for the phenotypic and genotypic composition of planktonic bacteria

Jürgens, K., & Matz, C. (2002) · Antonie van Leeuwenhoek · doi:10.1023/a:1020505204959 · Cited by 408 · see citing works

Year‐to‐year variation in the topology of a plant–pollinator interaction network

Alarcón, R., Waser, N., & Ollerton, J. (2008) · Oikos · doi:10.1111/j.0030-1299.2008.16987.x · Cited by 354 · see citing works

Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists

Chow, C. T., Kim, D. Y., Sachdeva, R., Caron, D. A., & Fuhrman, J. A. (2013) · The ISME Journal · doi:10.1038/ismej.2013.199 · Cited by 352 · see citing works

Seasonality in Ocean Microbial Communities

Giovannoni, S. J., & Vergin, K. L. (2012) · Science · doi:10.1126/science.1198078 · Cited by 314 · see citing works

The large-scale organization of the bacterial network of ecological co-occurrence interactions

Freilich, S., Kreimer, A., Meilijson, I., Gophna, U., Sharan, R., & Ruppin, E. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq118 · Cited by 313 · see citing works

Phytoplankton aggregate formation: observations of patterns and mechanisms of cell sticking and the significance of exopolymeric material

Kiørboe, T., & Hansen, J. L. S. (1993) · Journal of Plankton Research · doi:10.1093/plankt/15.9.993 · Cited by 297 · see citing works

Local similarity analysis reveals unique associations among marine bacterioplankton species and environmental factors

Quansong Ruan, A., Dutta, D., Schwalbach, M. S., Steele, J. A., Fuhrman, J. A., & Sun, F. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl417 · Cited by 295 · see citing works

Morphological and Compositional Changes in a Planktonic Bacterial Community in Response to Enhanced Protozoan Grazing

Jürgens, K., Pernthaler, J., Schalla, S., & Amann, R. (1999) · Applied and Environmental Microbiology · doi:10.1128/aem.65.3.1241-1250.1999 · Cited by 291 · see citing works

Seasonal dynamics of SAR11 populations in the euphotic and mesopelagic zones of the northwestern Sargasso Sea

Carlson, C. A., Morris, R. M., Parsons, R. J., Treusch, A. H., Giovannoni, S. J., & Vergin, K. L. (2008) · The ISME Journal · doi:10.1038/ismej.2008.117 · Cited by 287 · see citing works

The Genome of Nitrospina gracilis Illuminates the Metabolism and Evolution of the Major Marine Nitrite Oxidizer

Lücker, S., Nowka, B., Rattei, T., Spieck, E., & Daims, H. (2013) · Frontiers in Microbiology · doi:10.3389/fmicb.2013.00027 · Cited by 274 · see citing works

Microbial Ecology of Ocean Biogeochemistry: A Community Perspective

Strom, S. (2008) · Science · doi:10.1126/science.1153527 · Cited by 274 · see citing works

Global biogeography of SAR11 marine bacteria

Brown, M. V., Lauro, F. M., DeMaere, M. Z., Muir, L. C., Wilkins, D. E., Thomas, T., Riddle, M. J., Fuhrman, J. A., Andrews-Pfannkoch, C. M., Hoffman, J. M., et al. (2012) · Molecular Systems Biology · doi:10.1038/msb.2012.28 · Cited by 262 · see citing works

Coupling 16S‐ITS rDNA clone libraries and automated ribosomal intergenic spacer analysis to show marine microbial diversity: development and application to a time series

Brown, M. V., Schwalbach, M. S., Hewson, I., & Fuhrman, J. A. (2005) · Environmental Microbiology · doi:10.1111/j.1462-2920.2005.00835.x · Cited by 255 · see citing works

Formation and fate of marine snow: small-scale processes with large- scale implications

Kiørboe, T. (2001) · Scientia Marina · doi:10.3989/scimar.2001.65s257 · Cited by 249 · see citing works

Seasonality in bacterial diversity in north-west Mediterranean coastal waters: assessment through clone libraries, fingerprinting and FISH

Alonso‐Sáez, L., Balagué, V., Sà, E. L., Sánchez, O., González, J. M., Pinhassi, J., Massana, R., Pernthaler, J., Pedrós‐Alió, C., & Gasol, J. M. (2007) · FEMS Microbiology Ecology · doi:10.1111/j.1574-6941.2006.00276.x · Cited by 236 · see citing works

Community structure of marine bacterioplankton: patterns, networks, and relationships to function

Fuhrman, J. A., & Steele, J. A. (2008) · Aquatic Microbial Ecology · doi:10.3354/ame01222 · Cited by 223 · see citing works

Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years

Cram, J. A., Chow, C. T., Sachdeva, R., Needham, D. M., Parada, A. E., Steele, J. A., & Fuhrman, J. A. (2014) · The ISME Journal · doi:10.1038/ismej.2014.153 · Cited by 219 · see citing works

Temporal variability and coherence of euphotic zone bacterial communities over a decade in the Southern California Bight

Chow, C. T., Sachdeva, R., Cram, J. A., Steele, J. A., Needham, D. M., Patel, A. B., Parada, A. E., & Fuhrman, J. A. (2013) · The ISME Journal · doi:10.1038/ismej.2013.122 · Cited by 179 · see citing works

Zooplankton vertical migration and the active transport of dissolved organic and inorganic nitrogen in the Sargasso Sea

Steinberg, D. K., Goldthwait, S. A., & Hansell, D. A. (2002) · Deep Sea Research Part I Oceanographic Research Papers · doi:10.1016/s0967-0637(02)00037-7 · Cited by 169 · see citing works

A decade of seasonal dynamics and co-occurrences within freshwater bacterioplankton communities from eutrophic Lake Mendota, WI, USA

Kara, E. L., Hanson, P. C., Hu, Y. H., Winslow, L., & McMahon, K. D. (2012) · The ISME Journal · doi:10.1038/ismej.2012.118 · Cited by 167 · see citing works

Efficient statistical significance approximation for local similarity analysis of high-throughput time series data

Xia, L. C., Ai, D., Cram, J. A., Fuhrman, J. A., & Sun, F. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts668 · Cited by 142 · see citing works

Short-term observations of marine bacterial and viral communities: patterns, connections and resilience

Needham, D. M., Chow, C. T., Cram, J. A., Sachdeva, R., Parada, A. E., & Fuhrman, J. A. (2013) · The ISME Journal · doi:10.1038/ismej.2013.19 · Cited by 139 · see citing works

Erratum: Enterotypes of the human gut microbiome

Arumugam, M., Raes, J., Pelletier, É., Paslier, D. L., Yamada, T., Mende, D. R., Fernandes, G. D. R., Tap, J., Brüls, T., Batto, J.-M., et al. (2011) · Nature · doi:10.1038/nature10187 · Cited by 138 · see citing works

Atomic force microscopy reveals microscale networks and possible symbioses among pelagic marine bacteria

Malfatti, F., & Azam, F. (2009) · Aquatic Microbial Ecology · doi:10.3354/ame01355 · Cited by 97 · see citing works

Beta diversity of marine bacteria depends on temporal scale

Hatosy, S. M., Martiny, J. B. H., Sachdeva, R., Steele, J. A., Fuhrman, J. A., & Martiny, A. C. (2013) · Ecology · doi:10.1890/12-2125.1 · Cited by 94 · see citing works

Autotrophic picoplankton in mesozooplankton guts: evidence of aggregate feeding in the mesopelagic zone and export of small phytoplankton

Wilson, S. E., & Steinberg, D. K. (2010) · Marine Ecology Progress Series · doi:10.3354/meps08648 · Cited by 91 · see citing works

Co-occurrence patterns for abundant marine archaeal and bacterial lineages in the deep chlorophyll maximum of coastal California

Beman, J. M., Steele, J. A., & Fuhrman, J. A. (2011) · The ISME Journal · doi:10.1038/ismej.2010.204 · Cited by 82 · see citing works

Genomic properties of Marine Group A bacteria indicate a role in the marine sulfur cycle

Wright, J. J., Mewis, K., Hanson, N. W., Konwar, K. M., Maas, K. R., & Hallam, S. (2013) · The ISME Journal · doi:10.1038/ismej.2013.152 · Cited by 82 · see citing works

Diversity and population structure of Marine Group A bacteria in the Northeast subarctic Pacific Ocean

Allers, E., Wright, J. J., Konwar, K. M., Howes, C. G., Beneze, E., Hallam, S., & Sullivan, M. B. (2012) · The ISME Journal · doi:10.1038/ismej.2012.108 · Cited by 70 · see citing works

Depth matters: Microbial eukaryote diversity and community structure in the eastern North Pacific revealed through environmental gene libraries

Schnetzer, A., Moorthi, S. D., Countway, P. D., Gast, R. J., Gilg, I. C., & Caron, D. A. (2010) · Deep Sea Research Part I Oceanographic Research Papers · doi:10.1016/j.dsr.2010.10.003 · Cited by 70 · see citing works

Viral and Flagellate Control of Prokaryotic Production and Community Structure in Offshore Mediterranean Waters

Bonilla-Findji, O., Herndl, G. J., Gattuso, J., & Weinbauer, M. G. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.01376-08 · Cited by 60 · see citing works

Early Warning Signs in Social-Ecological Networks

Suweis, S. S., & D’Odorico, P. (2014) · PLoS ONE · doi:10.1371/journal.pone.0101851 · Cited by 54 · see citing works

Unicellular cyanobacteria with a new mode of life: the lack of photosynthetic oxygen evolution allows nitrogen fixation to proceed

Bothe, H., Tripp, H. J., & Zehr, J. P. (2010) · Archives of Microbiology · doi:10.1007/s00203-010-0621-5 · Cited by 52 · see citing works

High-resolution imaging of pelagic bacteria by Atomic Force Microscopy and implications for carbon cycling

Malfatti, F., Samo, T. J., & Azam, F. (2009) · The ISME Journal · doi:10.1038/ismej.2009.116 · Cited by 47 · see citing works

Particle fluxes in San Pedro Basin, California: A four-year record of sedimentation and physical forcing

Collins, L. E., Berelson, W. M., Hammond, D. E., Knapp, A. N., Schwartz, R., & Capone, D. G. (2011) · Deep Sea Research Part I Oceanographic Research Papers · doi:10.1016/j.dsr.2011.06.008 · Cited by 44 · see citing works

Marine Bacterial, Archaeal, and Protistan Association Networks

Cram, J. A., Sun, F., & Fuhrman, J. A. (2015) · Springer eBooks · doi:10.1007/978-1-4899-7475-4_721 · Cited by 5 · see citing works

Marine Bacterial, Archaeal, and Protistan Association Networks

Cram, J., Sun, F., & Fuhrman, J. A. (2014) · Encyclopedia of Metagenomics · doi:10.1007/978-1-4614-6418-1_721-3

Environmental stress destabilizes microbial networks

Hernandez, D. J., David, A. S., Menges, E. S., Searcy, C. A., & Afkhami, M. E. (2021) · The ISME Journal · doi:10.1038/s41396-020-00882-x · Cited by 1,582 · see citing works

From hairballs to hypotheses–biological insights from microbial networks

Röttjers, L., & Faust, K. (2018) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuy030 · Cited by 724 · see citing works

Earth microbial co-occurrence network reveals interconnection pattern across microbiomes

Ma, B., Wang, Y., Ye, S., Liu, S., Stirling, E., Gilbert, J. A., Faust, K., Knight, R. D., Jansson, J. K., Cardona, C., et al. (2020) · Microbiome · doi:10.1186/s40168-020-00857-2 · Cited by 576 · see citing works

Co-occurrence patterns of soybean rhizosphere microbiome at a continental scale

Zhang, B., Zhang, J., Liu, Y., Shi, P., & Wei, G. (2017) · Soil Biology and Biochemistry · doi:10.1016/j.soilbio.2017.12.011 · Cited by 414 · see citing works

Keystone taxa predict compositional change in microbial communities

Herren, C. M., & McMahon, K. D. (2018) · Environmental Microbiology · doi:10.1111/1462-2920.14257 · Cited by 344 · see citing works

Strong impact of anthropogenic contamination on the co‐occurrence patterns of a riverine microbial community

Hu, A., Ju, F., Hou, L., Li, J., Yang, X., Wang, H., Mulla, S. I., Sun, Q., Bürgmann, H., & Yu, C. (2017) · Environmental Microbiology · doi:10.1111/1462-2920.13942 · Cited by 309 · see citing works

Ecological stability of microbial communities in Lake Donghu regulated by keystone taxa

Liu, S., Huang, Y., Yu, Y., Huang, J., Zhou, Z., Zeng, J., Chen, P., Xiao, F., He, Z., & Yan, Q. (2022) · Ecological Indicators · doi:10.1016/j.ecolind.2022.108695 · Cited by 268 · see citing works

Sinking particles promote vertical connectivity in the ocean microbiome

Mestre, M., Ruiz‐González, C., Logares, R., Duarte, C. M., Gasol, J. M., & Sala, M. M. (2018) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1802470115 · Cited by 232 · see citing works

Microbial assembly, interaction, functioning, activity and diversification: a review derived from community compositional data

Liu, J., Meng, Z., Liu, X., & Zhang, X. (2019) · Marine Life Science & Technology · doi:10.1007/s42995-019-00004-3 · Cited by 199 · see citing works

Co-occurrence patterns of microbial communities affected by inoculants of plant growth-promoting bacteria during phytoremediation of heavy metal-contaminated soils

Kong, Z., Wu, Z., Glick, B. R., He, S., Huang, C., & Wu, L. (2019) · Ecotoxicology and Environmental Safety · doi:10.1016/j.ecoenv.2019.109504 · Cited by 145 · see citing works

Co-occurrence Analysis of Microbial Taxa in the Atlantic Ocean Reveals High Connectivity in the Free-Living Bacterioplankton

Milici, M., Deng, Z.-L., Tomasch, J., Decelle, J., Wos‐Oxley, M. L., Wang, H., Jáuregui, R., Plumeier, I., Giebel, H., Badewien, T. H., et al. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.00649 · Cited by 144 · see citing works

The antibiotic resistome of free-living and particle-attached bacteria under a reservoir cyanobacterial bloom

Guo, Y., Liu, M., Liu, L., Liu, X., Chen, H., & Yang, J. (2018) · Environment International · doi:10.1016/j.envint.2018.04.045 · Cited by 137 · see citing works

Environmental vulnerability of the global ocean epipelagic plankton community interactome

Chaffron, S., Delage, E., Budinich, M., Vintache, D., Henry, N., Nef, C., Ardyna, M., Zayed, A. A., Junger, P. C., Galand, P. E., et al. (2021) · Science Advances · doi:10.1126/sciadv.abg1921 · Cited by 128 · see citing works

Vertical environmental gradient drives prokaryotic microbial community assembly and species coexistence in a stratified acid mine drainage lake

She, Z., Pan, X., Wang, J., Shao, R., Wang, G., Wang, S., & Yue, Z. (2021) · Water Research · doi:10.1016/j.watres.2021.117739 · Cited by 121 · see citing works

Biogeography and co‐occurrence patterns of bacterial generalists and specialists in three subtropical marine bays

Mo, Y., Zhang, W., Wilkinson, D. M., Yu, Z., Xiao, P., & Yang, J. (2020) · Limnology and Oceanography · doi:10.1002/lno.11643 · Cited by 97 · see citing works

Thaumarchaeal ecotype distributions across the equatorial Pacific Ocean and their potential roles in nitrification and sinking flux attenuation

Santoro, A. E., Saito, M. A., Goepfert, T. J., Lamborg, C. H., Dupont, C. L., & DiTullio, G. R. (2017) · Limnology and Oceanography · doi:10.1002/lno.10547 · Cited by 96 · see citing works

Contrasting diversity patterns of prokaryotes and protists over time and depth at the San-Pedro Ocean Time series

Yeh, Y., & Fuhrman, J. A. (2022) · ISME Communications · doi:10.1038/s43705-022-00121-8 · Cited by 81 · see citing works

Toxic effects of nanoplastics on biological nitrogen removal in constructed wetlands: Evidence from iron utilization and metabolism

Zhao, X., Guo, M., Wang, Y., Jin, M., Hou, N., & Wu, H. (2024) · Water Research · doi:10.1016/j.watres.2024.121577 · Cited by 78 · see citing works

Differential co-occurrence relationships shaping ecotype diversification within Thaumarchaeota populations in the coastal ocean water column

Reji, L., Tolar, B. B., Smith, J. M., Chávez, F. P., & Francis, C. A. (2019) · The ISME Journal · doi:10.1038/s41396-018-0311-x · Cited by 78 · see citing works

Drivers of Regional Bacterial Community Structure and Diversity in the Northwest Atlantic Ocean

Zorz, J., Willis, C., Comeau, A., Langille, M. G. I., Johnson, C. L., Li, W. K. W., & LaRoche, J. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.00281 · Cited by 75 · see citing works

Longitudinal transmission of bacterial and fungal communities from seed to seed in rice

Kim, H., Jeon, J., Lee, K. K., & Lee, Y. (2022) · Communications Biology · doi:10.1038/s42003-022-03726-w · Cited by 75 · see citing works

Prokaryotic Life in the Deep Ocean's Water Column

Herndl, G. J., Bayer, B., Baltar, F., & Reinthaler, T. (2022) · Annual Review of Marine Science · doi:10.1146/annurev-marine-032122-115655 · Cited by 65 · see citing works

Major imprint of surface plankton on deep ocean prokaryotic structure and activity

Ruiz‐González, C., Mestre, M., Estrada, M., Sebastián, M., Salazar, G., Agustı́, S., Moreno‐Ostos, E., Reche, I., Álvarez–Salgado, X. A., Morán, X. A. G., et al. (2020) · Molecular Ecology · doi:10.1111/mec.15454 · Cited by 57 · see citing works

Impact of different types of anthropogenic pollution on bacterial community and metabolic genes in urban river sediments

Zhang, L., Li, X., Fang, W., Cheng, Y., Cai, H., & Zhang, S. (2021) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2021.148475 · Cited by 55 · see citing works

Microbial interactions strengthen deterministic processes during community assembly in a subtropical estuary

Lin, L., Xiong, J., Liu, L., Wang, F., Cao, W., & Xu, W. (2023) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2023.167499 · Cited by 55 · see citing works

Connectivity between surface and deep waters determines prokaryotic diversity in the North Atlantic Deep Water

Frank, A. H., Garcia, J. A. L., Herndl, G. J., & Reinthaler, T. (2016) · Environmental Microbiology · doi:10.1111/1462-2920.13237 · Cited by 54 · see citing works

Using Network Analysis and Predictive Functional Analysis to Explore the Fluorotelomer Biotransformation Potential of Soil Microbial Communities

Dong, S., Yan, P.-F., Mezzari, M. P., Abriola, L. M., Pennell, K. D., & Cápiro, N. L. (2024) · Environmental Science & Technology · doi:10.1021/acs.est.4c00942 · Cited by 51 · see citing works

Long-term patterns of an interconnected core marine microbiota

Krabberød, A. K., Deutschmann, I. M., Bjorbækmo, M. F. M., Balagué, V., Giner, C. R., Ferrera, I., Garcés, E., Massana, R., Gasol, J. M., & Logares, R. (2022) · Environmental Microbiome · doi:10.1186/s40793-022-00417-1 · Cited by 49 · see citing works

Seasonal succession of small planktonic eukaryotes inhabiting surface waters of a coastal upwelling system

Hernández‐Ruiz, M., Barber‐Lluch, E., Prieto, A., Álvarez–Salgado, X. A., Logares, R., & Teira, E. (2018) · Environmental Microbiology · doi:10.1111/1462-2920.14313 · Cited by 47 · see citing works

Disproportionate responses between free-living and particle-attached bacteria during the transition to oxygen-deficient zones in the Bohai Seawater

Zhao, D., Gao, P., Xu, L., Qu, L., Han, Y., Zheng, L., & Gong, X. (2021) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2021.148097 · Cited by 46 · see citing works

Combined organic-inorganic fertilization builds higher stability of soil and root microbial networks than exclusive mineral or organic fertilization

Yang, L., Sun, R., Li, J., Zhai, L., Cui, H., Fan, B., Wang, H., & Liu, H. (2022) · Soil Ecology Letters · doi:10.1007/s42832-022-0142-6 · Cited by 46 · see citing works

On-Site Analysis of Bacterial Communities of the Ultraoligotrophic South Pacific Gyre

Reintjes, G., Tegetmeyer, H. E., Bürgisser, M., Orlić, S., Tews, I., Zubkov, M. V., Voß, D., Zielinski, O., Quast, C., Glöckner, F. O., et al. (2019) · Applied and Environmental Microbiology · doi:10.1128/aem.00184-19 · Cited by 46 · see citing works

Seasonal marine microorganisms change neighbours under contrasting environmental conditions

Lambert, S., Lozano, J.-C., Bouget, F., & Galand, P. E. (2021) · Environmental Microbiology · doi:10.1111/1462-2920.15482 · Cited by 44 · see citing works

Microbe biogeography tracks water masses in a dynamic oceanic frontal system

Djurhuus, A., Boersch‐Supan, P. H., Mikalsen, S., & Rogers, A. D. (2017) · Royal Society Open Science · doi:10.1098/rsos.170033 · Cited by 41 · see citing works

Disentangling microbial networks across pelagic zones in the tropical and subtropical global ocean

Deutschmann, I. M., Delage, E., Giner, C. R., Sebastián, M., Poulain, J., Arı́stegui, J., Duarte, C. M., Acinas, S. G., Massana, R., Gasol, J. M., et al. (2024) · Nature Communications · doi:10.1038/s41467-023-44550-y · Cited by 40 · see citing works

Assessment of metagenomic assemblers based on hybrid reads of real and simulated metagenomic sequences

Wang, Z., Wang, Y., Fuhrman, J. A., Sun, F., & Zhu, S. (2019) · Briefings in Bioinformatics · doi:10.1093/bib/bbz025 · Cited by 38 · see citing works

Effects of Salinity on Assembly Characteristics and Function of Microbial Communities in the Phyllosphere and Rhizosphere of Salt-Tolerant Avicennia marina Mangrove Species

Yang, X., Dai, Z., Yuan, R., Guo, Z., Xi, H., He, Z., & Wei, M. (2023) · Microbiology Spectrum · doi:10.1128/spectrum.03000-22 · Cited by 35 · see citing works

Community stability of free-living and particle-attached bacteria in a subtropical reservoir with salinity fluctuations over 3 years

Yan, X. W., Li, S., Al, M. A., Mo, Y., Zuo, J., Grossart, H., Zhang, H., Yang, Y., Jeppesen, E., & Yang, J. (2024) · Water Research · doi:10.1016/j.watres.2024.121344 · Cited by 35 · see citing works

Sensitivity of Bacterioplankton to Environmental Disturbance: A Review of Baltic Sea Field Studies and Experiments

Lindh, M. V., & Pinhassi, J. (2018) · Frontiers in Marine Science · doi:10.3389/fmars.2018.00361 · Cited by 32 · see citing works

Disentangling temporal associations in marine microbial networks

Deutschmann, I. M., Krabberød, A. K., Latorre, F., Delage, E., Marrasé, C., Balagué, V., Gasol, J. M., Massana, R., Eveillard, D., Chaffron, S., et al. (2023) · Microbiome · doi:10.1186/s40168-023-01523-z · Cited by 32 · see citing works

Microbial community structures and important taxa across oxygen gradients in the Andaman Sea and eastern Bay of Bengal epipelagic waters

Guo, R., Ma, X., Zhang, J., Liu, C., Thu, C. A., Win, T. N., Aung, N. L., Win, H. S., Naing, S., Li, H., et al. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.1041521 · Cited by 31 · see citing works

Diversity dynamics of aerobic anoxygenic phototrophic bacteria in a freshwater lake

Villena‐Alemany, C., Mujakić, I., Porcal, P., Koblížek, M., & Piwosz, K. (2022) · Environmental Microbiology Reports · doi:10.1111/1758-2229.13131 · Cited by 27 · see citing works

Novel Interactions Between Phytoplankton and Bacteria Shape Microbial Seasonal Dynamics in Coastal Ocean Waters

Arandia‐Gorostidi, N., Krabberød, A. K., Logares, R., Deutschmann, I. M., Scharek, R., Morán, X. A. G., González, F., & Alonso‐Sáez, L. (2022) · Frontiers in Marine Science · doi:10.3389/fmars.2022.901201 · Cited by 27 · see citing works

The dynamics of bacterial community in a polyculture aquaculture system of Penaeus chinensis , Rhopilema esculenta and Sinonovacula constricta

Guan, X., Wang, B., Duan, P., Tian, J., Dong, Y., Jiang, J., Sun, B., & Zhou, Z. (2020) · Aquaculture Research · doi:10.1111/are.14528 · Cited by 26 · see citing works

Statistical significance approximation in local trend analysis of high-throughput time-series data using the theory of Markov chains

Xia, L. C., Ai, D., Cram, J. A., Liang, X., Fuhrman, J. A., & Sun, F. (2015) · BMC Bioinformatics · doi:10.1186/s12859-015-0732-8 · Cited by 25 · see citing works

Co-occurrence pattern and community assembly of broomcorn millet rhizosphere microbiomes in a typical agricultural ecosystem

Tian, L., Feng, Y., Gao, Z., Li, H., Wang, B., Huang, Y. Q., Gao, X., & Feng, B. (2022) · Applied Soil Ecology · doi:10.1016/j.apsoil.2022.104478 · Cited by 25 · see citing works

Sampling and Processing Methods Impact Microbial Community Structure and Potential Activity in a Seasonally Anoxic Fjord: Saanich Inlet, British Columbia

Torres-Beltrán, M., Mueller, A., Scofield, M., Pachiadaki, M., Taylor, C. D., Tyshchenko, K., Michiels, C., Lam, P., Ulloa, O., Jürgens, K., et al. (2019) · Frontiers in Marine Science · doi:10.3389/fmars.2019.00132 · Cited by 24 · see citing works

Potential lineage transmission within the active microbiota of the eggs and the nauplii of the shrimp <i>Litopenaeus stylirostris</i> : possible influence of the rearing water and more

Giraud, C., Callac, N., Beauvais, M., Mailliez, J.-R., Ansquer, D., Selmaoui-Folcher, N., Pham, D., Wabete, N., & Boulo, V. (2021) · PeerJ · doi:10.7717/peerj.12241 · Cited by 23 · see citing works

Conversion of mangrove forests to shrimp ponds in southeastern China destabilizes sediment microbial networks

Wu, L., Yang, P., Luo, L., Zhu, W., Hong, Y., Tong, C., & Peñuelas, J. (2022) · Geoderma · doi:10.1016/j.geoderma.2022.115907 · Cited by 23 · see citing works

Mutual environmental drivers of the community composition, functional attributes and co-occurrence patterns of bacterioplankton in the composite aquatic ecosystem of Taihu watershed in China

Liu, M., Han, X. B., Tong, J., Zhu, H.-F., & Bai, X. (2020) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiaa137 · Cited by 23 · see citing works

The AEGEAN-169 clade of bacterioplankton is synonymous with SAR11 subclade V (HIMB59) and metabolically distinct

Getz, E. W., Lanclos, V. C., Kojima, C. Y., Cheng, C., Henson, M. W., Schön, M. E., Ettema, T. J. G., Faircloth, B. C., & Thrash, J. C. (2023) · mSystems · doi:10.1128/msystems.00179-23 · Cited by 21 · see citing works

Vertical and Seasonal Patterns Control Bacterioplankton Communities at Two Horizontally Coherent Coastal Upwelling Sites off Galicia (NW Spain)

Hernando‐Morales, V., Varela, M. M., Needham, D. M., Cram, J. A., Fuhrman, J. A., & Teira, E. (2018) · Microbial Ecology · doi:10.1007/s00248-018-1179-z · Cited by 21 · see citing works

Persistent El Niño driven shifts in marine cyanobacteria populations

Larkin, A. A., Moreno, A. R., Fagan, A. J., Fowlds, A., Ruiz, A., & Martiny, A. C. (2020) · PLoS ONE · doi:10.1371/journal.pone.0238405 · Cited by 19 · see citing works

Microbial co-occurrence network in the rhizosphere microbiome: its association with physicochemical properties and soybean yield at a regional scale

Niraula, S., Rose, M., & Chang, W. (2022) · The Journal of Microbiology · doi:10.1007/s12275-022-2363-x · Cited by 18 · see citing works

Insight into the temporal dynamics of microbial succession and ecology mechanisms in biological activated carbon tanks

Li, C., Liu, C., Liu, J., & Feng, C. (2023) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2022.161366 · Cited by 16 · see citing works

Plant communities regulated by water-level gradient in Caohai aquatic–terrestrial ecotones affect bacterial and fungal structures and co-occurrence networks

Qiu, M., Wang, Y., Sun, C., Gao, X., & Lu, X. (2023) · Rhizosphere · doi:10.1016/j.rhisph.2023.100674 · Cited by 16 · see citing works

Microbial community and network responses across strong environmental gradients: How do they compare with macroorganisms?

Arboleda-Baena, C. M., Freilich, M., Pareja, C. B., Logares, R., la Iglesia, R. D., & Navarrete, S. A. (2024) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiae017 · Cited by 16 · see citing works

Functional vertical connectivity of microbial communities in the ocean

Chen, S. X., Xie, Z.-X., Yan, K.-Q., Chen, J., Li, D., Wu, P., Peng, L., Lin, L., Dong, C., Zhao, Z., et al. (2024) · Science Advances · doi:10.1126/sciadv.adj8184 · Cited by 14 · see citing works

Explore mediated co-varying dynamics in microbial community using integrated local similarity and liquid association analysis

Ai, D., Li, X., Pan, H., Chen, J., Cram, J. A., & Xia, L. C. (2019) · BMC Genomics · doi:10.1186/s12864-019-5469-8 · Cited by 14 · see citing works

Multivariate methods for testing hypotheses of temporal community dynamicsPreprint

Buckley, H. L., Day, N. J., Case, B. S., Lear, G., & Ellison, A. M. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/362822 · Cited by 14 · see citing works

Distinct assembly processes and environmental adaptation of abundant and rare archaea in Arctic marine sediments

Sun, J., Zhang, A., Zhang, Z., Liu, Y., Zhou, H., Cheng, H., Chen, Z., Li, H., Zhang, R., & Wang, Y. (2023) · Marine Environmental Research · doi:10.1016/j.marenvres.2023.106082 · Cited by 13 · see citing works

A decade of microbial community dynamics on sinking particles during high carbon export events in the eastern Fram Strait

Cardozo-Mino, M. G., Salter, I., Nöthig, E., Metfies, K., Ramondenc, S., Wekerle, C., Krumpen, T., Boëtius, A., & Bienhold, C. (2023) · Frontiers in Marine Science · doi:10.3389/fmars.2023.1173384 · Cited by 13 · see citing works

Effect of different types of industrial wastewater on the bacterial community of urban rivers

Zhang, L., Zhou, Y. D., Cheng, Y., Lu, W., & Liang, Y. (2021) · Journal of Freshwater Ecology · doi:10.1080/02705060.2021.1871978 · Cited by 13 · see citing works

Phosphate-related genomic islands as drivers of environmental adaptation in the streamlined marine alphaproteobacterial HIMB59

Molina-Pardines, C., Haro-Moreno, J. M., & López‐Pérez, M. (2023) · mSystems · doi:10.1128/msystems.00898-23 · Cited by 12 · see citing works

Environmental drivers of microbial assembly and stability in lakes across biogeographical regions

Stanić, I., Kajan, K., Selak, L., & Orlić, S. (2025) · Ecological Indicators · doi:10.1016/j.ecolind.2025.113324 · Cited by 12 · see citing works

Investigating Biodegradation of 1,4-Dioxane by Groundwater and Soil Microbiomes: Insights into Microbial Ecology and Process Prediction

Miao, Y., Zhou, T., Zheng, X., & Mahendra, S. (2023) · ACS ES&T Water · doi:10.1021/acsestwater.3c00185 · Cited by 11 · see citing works

Rhizosphere bacterial community structure of three minor grain crops: A case‐study from paired field sites in northern China

Tian, L., Wang, Y., Yang, J., Zhang, L., & Feng, B. (2021) · Land Degradation and Development · doi:10.1002/ldr.4132 · Cited by 11 · see citing works

The underappreciated role of biotic factors in controlling the bloom ecology of potentially harmful microalgae in the Hudson-Raritan Bay

Rothenberger, M. B., Gleich, S. J., & Flint, E. (2023) · Harmful Algae · doi:10.1016/j.hal.2023.102411 · Cited by 10 · see citing works

Symbiotic UCYN-A strains co-occurred with El Niño, relaxed upwelling, and varied eukaryotes over 10 years off Southern California

Fletcher-Hoppe, C., Yeh, Y., Raut, Y., Weissman, J., & Fuhrman, J. A. (2023) · ISME Communications · doi:10.1038/s43705-023-00268-y · Cited by 10 · see citing works

NetGAM: Using generalized additive models to improve the predictive power of ecological network analyses constructed using time-series data

Gleich, S. J., Cram, J. A., Weissman, J., & Caron, D. A. (2022) · ISME Communications · doi:10.1038/s43705-022-00106-7 · Cited by 9 · see citing works

MicNet toolbox: Visualizing and unraveling a microbial network

Favila, N., Madrigal‐Trejo, D., Legorreta, D., Sánchez-Pérez, J., Espinosa-Asuar, L., Eguiarte, L. E., & Souza, V. (2022) · PLoS ONE · doi:10.1371/journal.pone.0259756 · Cited by 9 · see citing works

Spatial Variations of Aquatic Bacterial Community Structure and Co-Occurrence Patterns in Coal Mining Subsidence Lake

Fan, T., Fang, W., Zhao, Y., Lu, A., Wang, S. L., Wang, X., Xu, L., Wei, X., & Zhang, L. (2022) · Diversity · doi:10.2139/ssrn.4039697 · Cited by 8 · see citing works

Composition and co-occurrence network of the rhizosphere bacterial community of two emergent macrophytes and implications for phytoremediation

Zhang, X., He, R., Su, R., Zeng, J., Qi, Z., Huang, R., Zhao, D., Guo, L., He, F., & Yu, Z. (2021) · Marine and Freshwater Research · doi:10.1071/mf20082 · Cited by 8 · see citing works

Dynamic prokaryotic communities in the dark western Mediterranean Sea

Mena, C., Balbín, R., Reglero, P., Martín, M., Santiago, R., & Sintes, E. (2021) · Scientific Reports · doi:10.1038/s41598-021-96992-3 · Cited by 7 · see citing works

Microeukaryotic plankton evolutionary constraints in a subtropical river explained by environment and bacteria along differing taxonomic resolutions

Ren, K., Mo, Y., Xiao, P., Rønn, R., Xu, Z., Xue, Y., Chen, H., Rivera, W. L., Rensing, C., & Yang, J. (2024) · ISME Communications · doi:10.1093/ismeco/ycae026 · Cited by 7 · see citing works

Marine Bacteria Community in a 150-m Depth Tachai Island, the Southeast Andaman Sea of Thailand

Sripan, D., Wilantho, A., Khitmoh, K., Wongsawaeng, D., Ouazzani, J., Chavanich, S. A., Tongsima, S., & Somboonna, N. (2021) · Frontiers in Marine Science · doi:10.3389/fmars.2021.624624 · Cited by 7 · see citing works

Effects of Granular Activated Carbon Amendment, Temperature, and Organic Loading Rate on Microbial Communities in Up-Flow Anaerobic Sludge Blanket Reactors

Dang, H., Yu, N., Zhang, Y., Zhang, L., & Liu, Y. (2023) · Journal of Environmental Engineering · doi:10.1061/joeedu.eeeng-7143 · Cited by 7 · see citing works

Subsurface Bacterioplankton Structure and Diversity in the Strongly-Stratified Water Columns within the Equatorial Eastern Indian Ocean

Li, J., Liu, X., Xie, N., Bai, M., Liu, L., Sen, B., & Wang, G. (2023) · Microorganisms · doi:10.3390/microorganisms11030592 · Cited by 7 · see citing works

Statistical significance approximation for local similarity analysis of dependent time series data

Zhang, F., Sun, F., & Luan, Y. (2019) · BMC Bioinformatics · doi:10.1186/s12859-019-2595-x · Cited by 7 · see citing works

Habitat filtering of bacterioplankton communities above polymetallic nodule fields and sediments in the Clarion‐Clipperton zone of the Pacific Ocean

Lindh, M. V., Maillot, B. M., Smith, C. R., & Church, M. J. (2018) · Environmental Microbiology Reports · doi:10.1111/1758-2229.12627 · Cited by 7 · see citing works

Limited Impact of Soil Microorganisms on the Endophytic Bacteria of Tartary Buckwheat (Fagopyrum tataricum)

Liu, X., Zhu, X., Dong, Y., Chen, Y., Li, M., & Li, C. (2023) · Microorganisms · doi:10.3390/microorganisms11082085 · Cited by 6 · see citing works

Managing the fuzzy boundaries and partitions of marine ecological systems using network theory

Rollan, A. P., Berlow, E. L., Williams, R., & Treml, E. A. (2025) · Scientific Reports · doi:10.1038/s41598-025-09601-y · Cited by 5 · see citing works

Seawater tides shaped mangrove sediment a bacterial community drastically distinct from supratidal land soil

Zhang, R., Liu, L., Yang, Y., Xu, S., He, Z., Tracy, M. E., Shi, S., & Guo, Z. (2025) · BMC Microbiology · doi:10.1186/s12866-025-04486-3 · Cited by 5 · see citing works

Particle size shapes prokaryotic communities and vertical connectivity in the water columns of the slope and central basin of the South China Sea

Ma, Z., Mara, P., Su, L., Wang, L., Li, H., Zhang, R., Edgcomb, V. P., & Li, J. (2024) · Global and Planetary Change · doi:10.1016/j.gloplacha.2024.104497 · Cited by 5 · see citing works

Environmental factors and potential probiotic lineages shape the active prokaryotic communities associated with healthy Penaeus stylirostris larvae and their rearing water

Giraud, C., Wabete, N., Lemeu, C., Selmaoui‐Folcher, N., Pham, D., Boulo, V., & Callac, N. (2024) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiae156 · Cited by 5 · see citing works

Characteristics of prokaryotic and fungal communities emerged in eco-engineered waste rock – Eucalyptus open woodlands at Ranger uranium mine

You, F., Lu, P., & Huang, L. (2021) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2021.151571 · Cited by 5 · see citing works

Niche differentiation within bacterial key-taxa in stratified surface waters of the Southern Pacific Gyre

Oggerin, M., Viver, T., Brüwer, J. D., Voß, D., García-Llorca, M., Zielinski, O., Orellana, L. H., & Fuchs, B. M. (2024) · The ISME Journal · doi:10.1093/ismejo/wrae155 · Cited by 4 · see citing works

Community stability of free-living and particle-attached prokaryotes in coastal waters across four seasons: insights from 9.5 years of weekly sampling

Lee, S. S., Lee, H. S., Xu, Z., Ushio, M., Zhang, X., & Liu, H. (2025) · Marine Pollution Bulletin · doi:10.1016/j.marpolbul.2025.117990 · Cited by 4 · see citing works

Ocean currents and environmental gradients shape prokaryotic community structure and function in the South China Sea

Wang, Y., Xu, J., Liu, Y., Liu, L., Xiao, S., Wang, X., Zhang, J.-D., Huang, S., & Zheng, Q. (2025) · Microbiology Spectrum · doi:10.1128/spectrum.01020-25 · Cited by 4 · see citing works

Emergent Diversity and Persistent Turnover in Evolving Microbial Cross-Feeding Networks

Lücken, L., Lennartz, S. T., Froehlich, J., & Blasius, B. (2022) · Frontiers in Network Physiology · doi:10.3389/fnetp.2022.834057 · Cited by 4 · see citing works

Cracking the dynamic code of the deep: Unexpected seasonal patterns of active protistan-bacterial microbiomes in the mesopelagic zone of the South China Sea

Sun, P., Wang, Y., Huang, X., Xu, S., Logares, R., Huang, Y., Xu, D., & Huang, B. (2024) · Progress In Oceanography · doi:10.1016/j.pocean.2024.103280 · Cited by 3 · see citing works

Rapid shifts in pond sediment microbiota in response to high ambient temperature in a water–sediment microcosm

Lü, W., Ren, H., Ding, W., Li, H., Yao, X., & Jiang, X. (2023) · Environmental Science and Pollution Research · doi:10.1007/s11356-023-26823-7 · Cited by 3 · see citing works

Identifying local associations in biological time series: algorithms, statistical significance, and applications

Ai, D., Chen, L., Xie, J., Cheng, L., Zhang, F., Luan, Y., Li, Y., Hou, S., Sun, F., & Xia, L. C. (2023) · Briefings in Bioinformatics · doi:10.1093/bib/bbad390 · Cited by 3 · see citing works

Marine Microbial Systems Ecology: Microbial Networks in the Sea

Gerard Muyzer, C. (2016) · Springer eBooks · doi:10.1007/978-3-319-33000-6_12 · Cited by 3 · see citing works

Environmental Gradients and Ecological Processes Are Main Drivers of Eukaryotic Diversity in the Eastern Red Sea

Angulo‐Preckler, C., Frappi, S., Laiolo, E., Lim, K. K., Rosas, D. E. R., Hempel, C. A., Frühe, L., Martynova, A., Steckbauer, A., Alamoudi, T., et al. (2026) · Environmental DNA · doi:10.1002/edn3.70254 · Cited by 2 · see citing works

The response relationship between nitrogen and aerobic methanotrophs in sediment of urban river, Beijing, China

Liu, Y., Yongjuan, C., Xiaoyan, W., & KangLi, X. (2018) · Journal of Lake Sciences · doi:10.18307/2018.0510 · Cited by 2 · see citing works

Analysis of the San Luis Obispo Bay Microbiome from a Network Perspective

Nguyen, V. L., Anderson, P. E., Pasulka, A. L., & Migler, T. (2022) · Studies in computational intelligence · doi:10.1007/978-3-030-93413-2_55 · Cited by 2 · see citing works

A novel method to accurately calculate statistical significance of local similarity analysis for high-throughput time series

Zhang, F., Shan, A., & Luan, Y. (2018) · Statistical Applications in Genetics and Molecular Biology · doi:10.1515/sagmb-2018-0019 · Cited by 2 · see citing works

Metagenomic-based network analysis reveals the importance of vitamin cross-feeding in marine microbial assemblagesPreprint

Arandia‐Gorostidi, N., Montiel, L., Latorre, F., Balagué, V., Gasol, J. M., Simó, R., Giner, C. R., & Logares, R. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.08.08.668683 · Cited by 2 · see citing works

Investigation of the effects of sulfadiazine on bacterial communities and nitrogen metabolism in coastal sediments

Su, L., Niu, M., Gu, C., Li, H., Hu, J., Wang, X., & Yang, S. (2026) · Journal of environmental chemical engineering · doi:10.1016/j.jece.2026.121450 · Cited by 1 · see citing works

Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years

Cram, J. A., Chow, C. T., Sachdeva, R., Needham, D. M., Parada, A. E., Steele, J. A., & Fuhrman, J. A. (2014) · The ISME Journal · doi:10.1038/ismej.2014.153 · Cited by 219 · see citing works

Vertical characterisation of phylogenetic divergence of microbial community structures, interaction, and sustainability in estuary and marine ecosystems

Ohore, O. E., Wei, Y., Wang, J., Wang, Y., Ifon, B. E., Liu, W., & Wang, Z. (2022) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2022.158369 · Cited by 29 · see citing works

Role of environmental factors for the vertical distribution (0–1000 m) of marine bacterial communities in the NW Mediterranean Sea

Ghiglione, J.-F., Palacios, C., Marty, J., Mével, G., Labrune, C., Conan, P., Pujo‐Pay, M., Garcia, N., & Goutx, M. (2008) · Biogeosciences · doi:10.5194/bg-5-1751-2008 · Cited by 62 · see citing works

Marine bacterial, archaeal and protistan association networks reveal ecological linkages

Steele, J. A., Countway, P. D., Xia, L., Vigil, P. D., Beman, J. M., Kim, D. Y., Chow, C.-E. T., Sachdeva, R., Jones, A. C., Schwalbach, M. S., et al. (2011) · The ISME Journal · doi:10.1038/ismej.2011.24 · Cited by 634 · see citing works

Patterns of connectivity in marine microbial communities

Marín-Vindas, C. (2023) · doi:10.5821/dissertation-2117-412172